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mmu_circElp4_189
Basic information of circular RNA
PanCircBase ID:
mmu_circElp4_189
mm39_Chr. Position ID:
chr2|105639610|105639799|-
Gene name:
Elp4
Transcript:
ENSMUST00000122965.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
189
Exon/intron sizes in nt:
189
Flanking exon/introns:
chr2:105624970-105639610|chr2:105639799-105644610
Splice length:
189
Other database IDs:
CIRCpedia: HSA_CIRCpedia_174296
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAACAGAAAAACATTTTAAGAATAGGAATTCAGAACCTTGGCTCACCGTTATGGGGAGATGACATTTGCTGTAAAGAAAACTGTGACAACAATCACAGGCTTACCAAGTTCCTCTACATTCTTCGTGGTCTTCTAAGATCCTCACTGTCCGCCTGCATCATCACGATGCCAGCACATCTTGTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGATCCTCACTGTCCGCCT
60.62
ACAGCAAATGTCATCTCCCCA
59.64
127
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACAGGCTTACCAAGTTCCTC
59.96
CCATAACGGTGAGCCAAGGT
60.04
151
PCR template sequence:
TCACAGGCTTACCAAGTTCCTCTACATTCTTCGTGGTCTTCTAAGATCCTCACTGTCCGCCTGCATCATCACGATGCCAGCACATCTTGTCCAGAAAAAACAGAAAAACATTTTAAGAATAGGAATTCAGAACCTTGGCTCACCGTTATGGGGAGATGACATTTGCTGTAAAGAAAACTGTGACAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-206-3p(1), mmu-miR-31-5p(1), mmu-miR-433-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATCTTGTCCAGAAAAAACAGAAAA
siRNA sets
TTTTCTGTTTTTTCTGGAC, TTTTTTCTGGACAAGATGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCELP4_189_ORF_1
0.7411
-0.028576681
0.077615374
210
ORF sequence:
ATGCCAGCACATCTTGTCCAGAAAAAACAGAAAAACATTTTAAGAATAGGAATTCAGAACCTTGGCTCACCGTTATGGGGAGATGACATTTGCTGTAAAGAAAACTGTGACAACAATCACAGGCTTACCAAGTTCCTCTACATTCTTCGTGGTCTTCTAAGATCCTCACTGTCCGCCTGCATCATCACGATGCCAGCACATCTTGTCCAG
Peptide sequence:
MPAHLVQKKQKNILRIGIQNLGSPLWGDDICCKENCDNNHRLTKFLYILRGLLRSSLSACIITMPAHLVQ
IRESfinder result
IRESfinder score
0.577801758
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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